Locus 6980

Sequence ID dm3.chr3L
Location 11,265,288 – 11,265,410
Length 122
Max. P 0.752020
window9607 window9608

overview

Window 7

Location 11,265,288 – 11,265,381
Length 93
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 67.06
Shannon entropy 0.56654
G+C content 0.45928
Mean single sequence MFE -20.58
Consensus MFE -8.90
Energy contribution -9.62
Covariance contribution 0.72
Combinations/Pair 1.25
Mean z-score -1.52
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.729312
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11265288 93 - 24543557
CAUCAUUGUGCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGCGUCCAC---UACUGAUAC---GAUCGGGACCUACAUUAUUUUGCACUUGCA
..((((.(.((((((((....)))))))))))))..............((((..---..(......---)....))))...........(((....))) ( -20.30, z-score =  -0.98, R)
>droPer1.super_20 1480533 90 + 1872136
CAUCAUU-CGCCGGUGAACUUUCGACUGCCGUGACUAUACGGAAUACUAUAGACGCAGACCCAGACGGAGACCUGGACUCAAAUCGCUCAA--------
.......-....(((((........((((.((..(((((.(.....))))))))))))..((((..(....))))).......)))))...-------- ( -17.80, z-score =   0.33, R)
>droEre2.scaffold_4784 11269498 93 - 25762168
CACCAUUGUGCCGUCGAUUGCUCGAUGGCCAUGACACCUCAAAAUUGCGUCUACUGAUACGAAUAC---GAACGGA--CCAACUGGACCUAUAUUUUU-
...(((.(.((((((((....))))))))))))...........(((..((....))..)))....---....((.--((....)).)).........- ( -19.90, z-score =  -1.40, R)
>droSec1.super_0 3480126 85 - 21120651
CAUCAUUGUGCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGUGUCUAC---UACUGAUAC---GAUCGGG--CCAACUGGACCUAUA------
..((((.(.((((((((....))))))))))))).........((((((((...---....)))))---))).(((--((....)).)))...------ ( -26.90, z-score =  -3.59, R)
>droSim1.chr3L 10654162 80 - 22553184
CAUCAUU-----GUCGAUUUCUCGAUGACCAUGACAACUCAAAAUUGUGUCUAC---UACUGAUAC---GAUCAGG--CCAACUGGACCUAUA------
(((..(.-----.((((....))))..)..)))..........((((((((...---....)))))---))).(((--((....)).)))...------ ( -18.00, z-score =  -1.96, R)
>consensus
CAUCAUUGUGCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGUGUCUAC___UACUGAUAC___GAUCGGG__CCAACUGGACCUAUA______
..((((...((((((((....)))))))).))))................................................................. ( -8.90 =  -9.62 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,265,317 – 11,265,410
Length 93
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 70.40
Shannon entropy 0.55374
G+C content 0.45982
Mean single sequence MFE -25.38
Consensus MFE -11.23
Energy contribution -11.73
Covariance contribution 0.51
Combinations/Pair 1.62
Mean z-score -1.56
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.752020
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11265317 93 - 24543557
AGUA-GG--GGAGCUGCUAAUUGAUAUAGCCGCAUCAUUGUGCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGCGUCCAC---UACUGAUACG
((((-(.--(((((.((((.......)))).)).((((.(.((((((((....)))))))))))))...............))).)---))))...... ( -30.30, z-score =  -2.77, R)
>droPer1.super_20 1480557 98 + 1872136
AGUACUGCCCUGCCAGCUAAUUGAUAUGGCUGCAUCAUUC-GCCGGUGAACUUUCGACUGCCGUGACUAUACGGAAUACUAUAGACGCAGACCCAGACG
.((.(((..((((((((((.......))))))...((.((-(..((....))..))).))(((((....)))))............))))...))))). ( -22.20, z-score =  -0.33, R)
>droAna3.scaffold_13337 5552736 87 - 23293914
AGUGCAG--GGACCCGGUAAUAGCUA-AUUUAUAUAGCUG---CAUCACUGUCUCAAUGGCCAUGACAAUACAGAAAUCGGUUC-----CACUGAUAU-
....(((--(((.(((((..((((((-.......))))))---..(((..(((.....)))..)))..........))))).))-----).)))....- ( -22.10, z-score =  -1.17, R)
>droEre2.scaffold_4784 11269524 96 - 25762168
AGUA-GG--GGAGCUGCUAAUUGAUAUAGCCGCACCAUUGUGCCGUCGAUUGCUCGAUGGCCAUGACACCUCAAAAUUGCGUCUACUGAUACGAAUACG
.(((-((--((.((.((((.......)))).))..(((.(.((((((((....))))))))))))...))))....(((..((....))..))).))). ( -29.70, z-score =  -2.07, R)
>droSec1.super_0 3480147 93 - 21120651
AGUA-GG--GGAGCUGCUAAUUGAUAUAGCCGCAUCAUUGUGCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGUGUCUAC---UACUGAUACG
((((-(.--.((((.((((.......)))).)).((((.(.((((((((....)))))))))))))...............))..)---))))...... ( -29.00, z-score =  -2.54, R)
>droSim1.chr3L 10654183 88 - 22553184
AGUA-GG--GGAGCUGUUAAUUGAUAUAGCCGCAUCAUU-----GUCGAUUUCUCGAUGACCAUGACAACUCAAAAUUGUGUCUAC---UACUGAUACG
((((-((--((.(((((........))))))......(.-----.((((....))))..)))..((((.(........)))))..)---))))...... ( -19.00, z-score =  -0.49, R)
>consensus
AGUA_GG__GGAGCUGCUAAUUGAUAUAGCCGCAUCAUUG_GCCGUCGAUUUCUCGAUGGCCAUGACAACUCAAAAUUGUGUCUAC___UACUGAUACG
.(((.....(((((.((((.......)))).)).((((...((((((((....)))))))).))))...............))).....)))....... (-11.23 = -11.73 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:18:09 2011